Manual nuclei segmentations in near-isotropic, reconstructed volume electron microscopy (FIB-SEM) of H89 treated HeLa cell (jrc_hela-h89-2)

Annotation description: Dense segmentations of nuclei in jrc_hela-h89-2 using Amira-Avizo (Thermo Fisher Scientific) and "Using Amira to manually segment organelles in vEM for machine learning V.3" protocol.

Annotation protocol: Using Amira to manually segment organelles in vEM for machine learning V.3 (http://dx.doi.org/10.17504/protocols.io.bp2l61rb5vqe/v3)

Software: Amira 3D 2021.1, Classic Segmentation Workroom

Classes annotated: Nuclei

Source (EM) dataset ID: jrc_hela-h89-2

Source (EM) voxel size (nm): 8 x 8 x 8 (X, Y, Z)

Source (EM) data dimensions (µm): 50 x 8 x 98.86 (X, Y, Z)

Source (EM) DOI: https://doi.org/10.25378/janelia.13469970

Dataset URL: s3://janelia-cosem-datasets/jrc_hela-h89-2/jrc_hela-h89-2.zarr/recon-1/labels/inference/segmentations/nuc/

Visualization website: https://openorganelle.janelia.org/datasets/jrc_hela-h89-2